Introduction to the command line for Bioinformatics

  • Sheffield - 12th February 2020
  • 09:30am - 5pm
  • Bartolome House, Seminar Room EG03


This course offers an introduction to working with Linux. We will describe the Linux environment so that participants can start to utilize command-line tools and feel comfortable using a text-based way of interacting with a computer. We give example of processing data arising from Next-Generation Sequencing experiments, in particular an RNA-seq experiment.

This course is highly-recommended as a pre-requisite for our course Bulk RNA-seq Analysis in R

Who should attend this course?

Objectives:- After this course you should be able to:

  • Connect to a Unix / Linux system
  • Manipulate files and directories within the Linux system
  • Work with text files
  • Understand how to structure and write a simple shell script
  • Run programs from the command-line

Aims:- During this course you will learn about:

  • Navigating through a Unix file system
  • Creating and deleting files
  • Searching for files and for text within a file
  • Writing and executing simple shell scripts


  • No prior programming experience is required, but those attending should be able to use a plain text editor.


  • Mark Dunning, Bioinformatics Core Director
  • Matthew Parker, Bioinformatics Core Clinical Scientist
  • Emily Chambers, Bioinformatics Core Analyst

Course Data

Timetable (provisional)


A link to register for the course will appear hereā€¦